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(-) Description

Title :  CRYSTAL STRUCTURE OF NAD KINASE P252D MUTANT FROM LISTERIA MONOCYTOGENES
 
Authors :  G. Poncet-Montange, L. Assairi, M. Gelin, S. Pochet, G. Labesse
Date :  01 Nov 15  (Deposition) - 09 Nov 16  (Release) - 09 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.88
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Gram-Positive Nad Kinase, Allostery, Citrate, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Poncet-Montange, L. Assairi, M. Gelin, S. Pochet, G. Labesse
Crystal Structure Of Nad Kinase 1 From Listeria Monocytogenes: P252D Mutant
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NAD KINASE 1
    Chains: A, B, C, D
    EC Number: 2.7.1.23
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PLA15.3.3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NADK1, LMO0968
    Organism Scientific: LISTERIA MONOCYTOGENES
    Organism Taxid: 1639
    Synonym: ATP-DEPENDENT NAD KINASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5EJG)

(-) Sites  (0, 0)

(no "Site" information available for 5EJG)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5EJG)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5EJG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5EJG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5EJG)

(-) Exons   (0, 0)

(no "Exon" information available for 5EJG)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:253
                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhhhhhh....ee.......eeee.hhhhhhhhhhhh........eeee...........hhhhhhhhhhhhhh...eeeeeeeeeeeee..eee....eeee....eeeeee..eeeeeee..eeeee.hhhhhhhhhhh...ee.....eeeeeee..............eeee....eeeee.....eeee..eeee.....eeeeeeeeeeeeeee....hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ejg A   1 MKYMITSKGDEKSDLLRLNMIAGFGEYDMEYDDVEPEIVISIGGDGTFLSAFHQYEERLDEIAFIGIHTGHLGFYADWRPAEADKLVKLLAKGEYQKVSYPLLKTTVKKEATYLALNESTVKSPFVVDVVINDIHFERFRGDGLCMSTPSGTTAYNKSLGGALMHPSIEAMQLTEMASINNRVYRTIGSPLVFPKHHVVSLQPVDKDFQISVDHLSILHRDVQEIRYEVSAKKIHFARFRSFDFWRRVHDSFI 262
                                    10        20        30        40        50        60        70        80        90       100       115       125  ||   138       148       158       168       178       188       198       208   ||  219       229       239       249       259   
                                                                                                                                     108|           128|                                                                             212|                                                
                                                                                                                                      114            132                                                                              214                                                


Chain B from PDB  Type:PROTEIN  Length:254
                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee....hhhhhhhhhhhhhhhh........eeeee.hhhhhhhhhhhh.......eeeee.......hhhhhhhhhhhhhhh.eeeeeeeeeeeee..eeeee..eeeeee.....eeeeee..eeeeeee..eeeee.hhhhhhhhhhhh..ee.....eeeeeee..............eeee...eeeeee.....eeeee..eeeee....eeeeeeeeeeeeeee....hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ejg B   1 MKYMITSKGDEKSDLLRLNMIAGFGEYEYDDVEPEIVISIGGDGTFLSAFHQYEERLDEIAFIGIHTFYADWRPAEADKLVKLLAKGYQKVSYPLLKTTVKYEATYLALNESTVKSSGGPFVVDVVINDIHFERFRGDGLCMSTPSGTTAYNKSLGGALMHPSIEAMQLTEMASINNRVYRTIGSPLVFPKHHVVSLQPVNDKDFQISVDHLSILHRDVQEIRYEVSAKKIHFARFRSFDFWRRVHDSFIEDLE 266
                                    10        20      ||32        42        52        62      ||76        86      ||97       107 ||    122       132       142       152       162       172       182       192       202       212       222       232       242       252       262    
                                                     27|                                     69|                 93|           109|                                                                                                                                                       
                                                      30                                      74                  95            115                                                                                                                                                       


Chain C from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh...........eeee.....hhhhhhh.eeee.........hhhhhhh.eeeee..eeeeee..eeeee..eeeeee....eeeeeee..eeeeeeeeeeeeee.hhhhhhhhhhh...ee......eeeeeeee............eee.....eeeee.....eeeee.....ee....eeeeee....eeeee..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ejg C  13 SDLLRLNMIAGFMEYDDEPEIVISIGGDGTFLSAFHIAFIGIHTFYADWADKLVKLLYQKVSYPLLKTTVKKEATYLALNESTVKSSGGPFVVDVVINDIHFERFRGDGLCMSTPSGTTAYNKSLGGALMHPSIEAMQLTEMASINNRVYRTIGSPLVFPKHHVVSLQPVNDKDFQISVDHLSILHRDVQEIRYEVSAKKIHFARFFDFWRRVHDSFI 262
                                    22 ||   ||37        47     || 65   ||   83      ||97       107||     122       132       142       152       162       172       182       192       202       212       222       232       242     ||254        
                                      24|  33|                53|     69|  78|     90|          108|                                                                                                                                   248|           
                                       29   35                 62      74   83      95           114                                                                                                                                    251           


Chain D from PDB  Type:PROTEIN  Length:252
                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee..hhhhhhhhhhhhhhhh............eeeee.hhhhhhhhhh.........eeeee............hhhhhhhhhh.eee..eeeeee.....ee....eee.......eeeeeee...eeeeeee.eeeee.hhhh.hhhhhh...ee.....eeeeeee..............eeee....eeeee......eeee..eeee.....eeeeee....eee......hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ejg D   2 KYMITSKGDEKSDLLRLNMIAGFGEYDMEYDDVEPEIVISIGGDGTFLSAFHQYEERLDEIAFIGIHTGGFYADWRPAEADKLVKLLAKVSYPLLKTTVKYKKEATYLALNESTVKSSGGPFVVDVVINDIHFERFRGDGLCMSTPSGTTAYNKSLGGALMHPSIEAMQLTEMASINNRVYRTIGSPLVFPKHHVVSLQPVNDKDFQISVDHLSILHRDVQEIRYEVSAKKIHFARFRSFDFWRRVHDSFIE 263
                                    11        21        31        41        51        61        73        83       |98       108||     121       131       141       151       161       171       181       191       201       211       221       231       241       251       261  
                                                                                               70|                91|         109|                                                                                                                                                      
                                                                                                73                 97          113
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5EJG)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5EJG)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5EJG)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        NADK1_LISMO | Q8Y8D7: 2i1w 2i29 2i2a 2i2b 2i2c 2i2d 2i2f 2q5f 3v7u 3v7w 3v7y 3v80 3v8m 3v8n 3v8p 3v8q 3v8r 4dy6 5dhp 5dhq 5dhr 5dhs 5dht 5dhu 5ejf 5ejh 5eji

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